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Coexpression cluster:C3378

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Full id: C3378_chronic_NK_acute_CD4_cord_leukemia_CD8



Phase1 CAGE Peaks

Hg19::chr13:49078881..49078890,-p@chr13:49078881..49078890
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Hg19::chr13:49078915..49078926,-p@chr13:49078915..49078926
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Hg19::chr2:240243731..240243742,-p@chr2:240243731..240243742
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Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


No GOStat results

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br>disease_data<br>


Cell Type
Ontology termp-valuen
T cell1.07e-2825
pro-T cell1.07e-2825
lymphoid lineage restricted progenitor cell4.77e-1952
lymphocyte1.38e-1853
common lymphoid progenitor1.38e-1853
hematopoietic cell8.51e-17182
hematopoietic stem cell8.03e-15172
angioblastic mesenchymal cell8.03e-15172
nongranular leukocyte6.60e-14119
leukocyte7.61e-14140
circulating cell5.17e-136
mature alpha-beta T cell5.69e-1318
alpha-beta T cell5.69e-1318
immature T cell5.69e-1318
mature T cell5.69e-1318
immature alpha-beta T cell5.69e-1318
hematopoietic oligopotent progenitor cell1.40e-12165
hematopoietic multipotent progenitor cell1.40e-12165
hematopoietic lineage restricted progenitor cell7.15e-12124
natural killer cell6.69e-103
pro-NK cell6.69e-103
CD4-positive, alpha-beta T cell3.67e-096
regulatory T cell8.40e-082
CD4-positive, CD25-positive, alpha-beta regulatory T cell8.40e-082
naive regulatory T cell8.40e-082
Uber Anatomy
Ontology termp-valuen
blood6.13e-0715
haemolymphatic fluid6.13e-0715
organism substance6.13e-0715
Disease
Ontology termp-valuen
hematologic cancer7.16e-0951
immune system cancer7.16e-0951
leukemia1.22e-0739


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

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ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data


This analysis result is provided for C0 - C305 clusters.